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[192558_s_at] 40S ribosomal protein

Description B0393.1 /REP_DB=WormBase Gene ID /WP=CE00854 /GEN=rps-0 /TR=SW:P46769 /GB=CAA86061.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=40S ribosomal protein
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 19      6grp_total > 50      4grp_total > 17      6grp_highest_sub > 03_04      6grp_cgc > 93      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17115
1 2 3 4 range
A 21319.6
(-3)
P 		28424.9
(-0.1)
P 		25813.5
(-1.2)
P 		36138.1
(3)
P 		14819
B 22073.8
(-3)
P 		23177.4
(-2)
P 		27394.1
(2)
P 		28499
(3)
P 		6425
C 19023.2
(-3)
P 		22887.6
(-1.5)
P 		20367.1
(-2.5)
P 		34250.2
(3)
P 		15227
avr 20805.5
(-3) 		24830
(-1) 		24524.9
(-1.2) 		32962.4
(3) 		12157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8354
1 2 3 4 5 6 range
A 23639
(3)
P 		19549.7
(-1.3)
P 		23682.8
(3)
P 		23149.7
(2.5)
P 		17849
(-3)
P 		21781.4
(1)
P 		5834
B 20163.4
(2.6)
P 		19490
(1.7)
P 		20145.5
(2.6)
P 		20481.6
(3)
P 		16671.2
(-1.9)
P 		15784.9
(-3)
P 		4697
C 19397.3
(0.1)
P 		18962.6
(-0.3)
P 		23322.6
(3)
P 		21723.8
(1.8)
P 		19361
(0)
P 		15329.2
(-3)
P 		7993
avr 21066.6
(1.3) 		19334.1
(-0.9) 		22383.6
(3) 		21785
(2.2) 		17960.4
(-2.6) 		17631.8
(-3) 		4752
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2473
1 2 3 4 range
A 7762.5
(3)
P 		6170.3
(-0.9)
P 		6748.1
(0.5)
P 		5289.9
(-3)
P 		2473
B 7039.2
(3)
P 		5724.3
(-3)
P 		6347.9
(-0.2)
P 		6073.2
(-1.4)
P 		1315
C 6297.2
(-0.6)
P 		6580.3
(0.7)
P 		7098.6
(3)
P 		5775.1
(-3)
P 		1324
avr 7033
(3) 		6158.3
(-1) 		6731.5
(1.6) 		5712.7
(-3) 		1320

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2832
1 2 3 4 5 6 range
A 4357.7
(-3)
P 		6952.8
(3)
P 		5157.6
(-1.2)
P 		5871.3
(0.5)
P 		5386
(-0.6)
P 		5303.1
(-0.8)
P 		2595
B 7015.9
(3)
P 		6487.4
(1.5)
P 		4891.9
(-3)
P 		5424.9
(-1.5)
P 		6773.3
(2.3)
P 		5886.1
(-0.2)
P 		2124
C 7189.7
(3)
P 		5786.1
(0)
P 		5936
(0.3)
P 		4368.7
(-3)
P 		6264.9
(1)
P 		5131.6
(-1.4)
P 		2821
avr 6187.8
(1.9) 		6408.8
(3) 		5328.5
(-2.5) 		5221.6
(-3) 		6141.4
(1.6) 		5440.3
(-1.9) 		1187
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192558_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7315
Sequence Type Exemplar sequence
Representative Public ID B0393.1 NCBI
Target Description B0393.1 /REP_DB=WormBase Gene ID /WP=CE00854 /GEN=rps-0 /TR=SW:P46769 /GB=CAA86061.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=40S ribosomal protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_065577(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065577 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-0) (rps-0) mRNA, complete cds. 11/11 A 
SNAP00000037564 ENSEMBL cdna:SNAP chromosome:CEL140:III:4753012:4754008:-1 11/11 None
GENEFINDER00000037579 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4753012:4754008:-1 11/11 None
B0393.1.2 ENSEMBL cdna:known chromosome:CEL140:III:4752962:4754015:-1 gene:B0393.1 11/11 None
B0393.1.1 ENSEMBL cdna:known chromosome:CEL140:III:4752962:4754013:-1 gene:B0393.1 11/11 None
B0393.1.3 ENSEMBL cdna:known chromosome:CEL140:III:4752964:4754015:-1 gene:B0393.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4753011-4754008(-) 100.0 100.0
Public Domain and Genome References
Gene Title 40S ribosomal protein
Gene Symbol rps-0
Ensembl B0393.1
Entrez Gene 175628 Entrez gene
SwissProt P46769 EMBL-EBI
WormBase CE00854 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258799_AT 40S ribosomal protein SA (RPSaB) at
CANINE:1599303_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE:1585059_S_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE_2:CFA.10840.1.S1_S_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE_2:CFAAFFX.322.1.S1_X_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
DROSOPHILA_2:1638847_S_AT stubarista dm
DROSGENOME1:143369_AT stubarista dm
CHICKEN:GGA.16564.1.S1_A_AT ribosomal protein SA gga
CHICKEN:GGA.16564.2.S1_S_AT ribosomal protein SA gga
CHICKEN:GGA.16564.3.S1_S_AT ribosomal protein SA gga
HU35KSUBD:RC_H75933_F_AT ribosomal protein SA hs
HU35KSUBD:RC_H75933_I_AT ribosomal protein SA hs
HU35KSUBD:RC_H75933_R_AT ribosomal protein SA hs
HG-U95AV2:256_S_AT ribosomal protein SA hs
HC-G110:256_S_AT ribosomal protein SA hs
HUGENEFL:U43901_RNA1_S_AT ribosomal protein SA hs
HUGENEFL:M14199_S_AT ribosomal protein SA hs
U133_X3P:HS.181357.2.A1_3P_X_AT ribosomal protein SA hs
HG-U133A_2:213801_X_AT ribosomal protein SA hs
HG-U133_PLUS_2:213801_X_AT ribosomal protein SA hs
HG-U133A:213801_X_AT ribosomal protein SA hs
HG-U95C:59681_AT ribosomal protein SA hs
HU35KSUBB:RC_AA062744_AT Ribosomal protein SA hs
MOUSE430A_2:1416196_AT ribosomal protein SA mm
MOE430A:1416196_AT ribosomal protein SA mm
MOUSE430_2:1416196_AT ribosomal protein SA mm
MOUSE430A_2:1448245_AT ribosomal protein SA mm
MOE430A:1448245_AT ribosomal protein SA mm
MOUSE430_2:1448245_AT ribosomal protein SA mm
MU11KSUBA:J02870_S_AT ribosomal protein SA mm
MU11KSUBA:C78471_RC_F_AT ribosomal protein SA mm
MU11KSUBA:AA048123_F_AT ribosomal protein SA mm
MU11KSUBB:MSA.31906.0_F_AT ribosomal protein SA mm
MU11KSUBB:MSA.30636.0_F_AT ribosomal protein SA mm
MG-U74AV2:97750_AT ribosomal protein SA mm
MU11KSUBA:AA165765_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14766_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14767_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14768_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBB:TC30202_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39262_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39263_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39264_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC42121_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC42121_I_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
RN-U34:D25224_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34A:D25224_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34A:D25224_G_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34B:RC_AA924747_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1388244_S_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1388244_S_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1371189_X_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1371189_X_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1367569_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1367569_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
YEAST_2:1770653_AT Protein component of the small (40S) ribosomal subunit, nearly identical to Rps0Bp; required for maturation of 18S rRNA along with Rps0Bp; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
15935 small ribosomal subunit inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA86061 Hypothetical protein B0393.1 [Caenorhabditis elegans] ref|NP_497978.1| Ribosomal Protein, Small subunit family member (rps-0) [Caenorhabditis elegans] sp|P46769|RSSA_CAEEL Probable 40S ribosomal protein SA (p40) 1.0E-143
blast CAE71139 Hypothetical protein CBG17994 [Caenorhabditis briggsae] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR001865 EMBL-EBI Ribosomal protein S2 2.7E-96
Sequence
Target Sequence 
>C. ELEGANS:192558_S_AT
tgatgtcgtcgttgtttcggctagaccatacgcccagcgtgctcttctcaagttcgctgc
tcataccggagctaccgccatcttcggacgtttctctccaggatgtcttaccaaccagat
ccaaaagaccttcaaggagccaagacttctcgtcatctctgacccacgtatcgatcatca
ggctgtcactgaggcttcctacgtcggagttccagtcatctccttcgtcaacaccgagtc
tccactcaagttgatcgacatcggagttccatgcaacaacaagggagaacgctcaatcgg
acttatgtggtggatgctcgctcgcgagatcctcattctccgtggaaagatctcccgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATGTCGTCGTTGTTTCGGCTAGA 131 565 228 Antisense
TCAAGTTCGCTGCTCATACCGGAGC 570 631 275 Antisense
TTCTCTCCAGGATGTCTTACCAACC 676 687 319 Antisense
AAGGAGCCAAGACTTCTCGTCATCT 271 161 361 Antisense
ACCCACGTATCGATCATCAGGCTGT 680 89 389 Antisense
TTCCTACGTCGGAGTTCCAGTCATC 700 685 423 Antisense
ACACCGAGTCTCCACTCAAGTTGAT 456 109 458 Antisense
GATCGACATCGGAGTTCCATGCAAC 385 415 480 Antisense
GAACGCTCAATCGGACTTATGTGGT 130 347 514 Antisense
TGGATGCTCGCTCGCGAGATCCTCA 232 551 538 Antisense
TTCTCCGTGGAAAGATCTCCCGTCA 479 693 563 Antisense
Sequence Source Affymetrix Proprietary Database